﻿using System;
using System.Collections.Generic;
using System.Text;

namespace Fysh.ComputerScience.Genetics
{
    public class AlignmentResult
    {
        /// <summary>
        /// Collection of sequence aligned
        /// </summary>
        public SequenceCollection Sequences
        {
            get
            {
                throw new System.NotImplementedException();
            }
            set
            {
            }
        }
        /// <summary>
        /// Retreives the alignment score for two sequences
        /// </summary>
        /// <param name="firstSequence">First sequence object</param>
        /// <param name="secondSequence">Second sequence object</param>
        public float GetScore(Sequence firstSequence, Sequence secondSequence)
        {
            throw new System.NotImplementedException();
        }

        /// <summary>
        /// Retreives the alignment for two sequences
        /// </summary>
        /// <param name="firstSequence">First sequence object</param>
        /// <param name="secondSequence">Second sequence object</param>
        public string GetAlignment(string firstSequence, string secondSequence)
        {
            throw new System.NotImplementedException();
        }

        /// <summary>
        /// Retreives the score matrix for two sequences
        /// </summary>
        /// <param name="firstSequence">First sequence object</param>
        /// <param name="secondSequence">Second sequence object</param>
        public float[,] GetScoreMatrix(Sequence firstSequence, Sequence secondSequence)
        {
            throw new System.NotImplementedException();
        }
    }
}
